Strain identifier
BacDive ID: 17854
Type strain: 
Species: Methanolinea mesophila
Strain Designation: TNR
Strain history: <- I.-C. Tseng, National Cheng Kung University, Dept. of Life Sciences, Tainan, Taiwan; TNR <- S. Sakai and H. Imachi {2005}
NCBI tax ID(s): 547055 (species)
version 8.1 (current version)
General
@ref: 17235
BacDive-ID: 17854
DSM-Number: 23604
keywords: genome sequence, 16S sequence, Archaea, anaerobe, mesophilic, rod-shaped
description: Methanolinea mesophila TNR is an anaerobe, mesophilic, rod-shaped archaeon that was isolated from rice field soil.
NCBI tax id
- NCBI tax id: 547055
- Matching level: species
strain history
- @ref: 17235
- history: <- I.-C. Tseng, National Cheng Kung University, Dept. of Life Sciences, Tainan, Taiwan; TNR <- S. Sakai and H. Imachi {2005}
doi: 10.13145/bacdive17854.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Methanomicrobia
- order: Methanomicrobiales
- family: Methanoregulaceae
- genus: Methanolinea
- species: Methanolinea mesophila
- full scientific name: Methanolinea mesophila Sakai et al. 2012
@ref: 17235
domain: Archaea
phylum: Euryarchaeota
class: Methanomicrobia
order: Methanomicrobiales
family: Methanoregulaceae
genus: Methanolinea
species: Methanolinea mesophila
full scientific name: Methanolinea mesophila Sakai et al. 2012
strain designation: TNR
type strain: yes
Morphology
cell morphology
- @ref: 30394
- cell length: 4.25 µm
- cell width: 0.3 µm
- cell shape: rod-shaped
- motility: no
colony morphology
- @ref: 17235
- incubation period: >14 days
Culture and growth conditions
culture medium
- @ref: 17235
- name: PELOTOMACULUM MEDIUM (DSMZ Medium 960)
- growth: yes
- link: https://mediadive.dsmz.de/medium/960
- composition: Name: PELOTOMACULUM MEDIUM (DSMZ Medium 960; with strain-specific modifications) Composition: Na2CO3 1.49701 g/l NH4Cl 0.538922 g/l L-Cysteine HCl x H2O 0.299401 g/l Na2S x 9 H2O 0.299401 g/l MgCl2 x 6 H2O 0.199601 g/l KH2PO4 0.139721 g/l Na acetate 0.0998004 g/l Yeast extract 0.0998004 g/l Nitrilotriacetic acid 0.0127745 g/l NaCl 0.000998004 g/l FeCl2 x 4 H2O 0.000998004 g/l Sodium resazurin 0.000499002 g/l Pyridoxine hydrochloride 9.98004e-05 g/l ZnCl2 9.98004e-05 g/l CaCl2 x 2 H2O 9.98004e-05 g/l NiCl2 x 6 H2O 9.98004e-05 g/l MnCl2 x 4 H2O 9.98004e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l Na2WO4 x 2 H2O 3.99202e-05 g/l CoCl2 x 6 H2O 2.99401e-05 g/l Na2SeO3 x 5 H2O 2.99401e-05 g/l Na2MoO4 x 2 H2O 2.99401e-05 g/l CuCl2 1.99601e-05 g/l Biotin 1.99601e-05 g/l Folic acid 1.99601e-05 g/l H3BO3 9.98004e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 17235 | positive | growth | 37 | mesophilic |
| 30394 | positive | growth | 20-40 | |
| 30394 | positive | optimum | 37 | mesophilic |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 30394 | positive | growth | 6.5-7.4 |
| 30394 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance |
|---|---|
| 17235 | anaerobe |
| 30394 | anaerobe |
metabolite production
- @ref: 30394
- Chebi-ID: 16183
- metabolite: methane
- production: yes
Isolation, sampling and environmental information
isolation
- @ref: 17235
- sample type: rice field soil
- geographic location: Taiwan, Tainan
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Field |
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
taxonmaps
- @ref: 69479
- File name: preview.99_189823.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17869;96_69755;97_90997;98_123661;99_189823&stattab=map
- Last taxonomy: Methanolinea mesophila subclade
- 16S sequence: AB447467
- Sequence Identity:
- Total samples: 490
- soil counts: 221
- aquatic counts: 249
- animal counts: 4
- plant counts: 16
Sequence information
16S sequences
- @ref: 17235
- description: Methanolinea mesophila gene for 16S ribosomal RNA, partial sequence
- accession: AB447467
- length: 1397
- database: ena
- NCBI tax ID: 547055
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Methanolinea mesophila DSM 23604 | GCA_017873855 | contig | ncbi | 547055 |
| 66792 | Methanolinea mesophila DSM 23604 | 2913416594 | draft | img | 547055 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 17235 | 56.4 | high performance liquid chromatography (HPLC) |
| 30394 | 56.4 |
External links
@ref: 17235
culture collection no.: DSM 23604, NBRC 105659
straininfo link
- @ref: 86845
- straininfo: 397688
literature
- topic: Phylogeny
- Pubmed-ID: 21841010
- title: Methanolinea mesophila sp. nov., a hydrogenotrophic methanogen isolated from rice field soil, and proposal of the archaeal family Methanoregulaceae fam. nov. within the order Methanomicrobiales.
- authors: Sakai S, Ehara M, Tseng IC, Yamaguchi T, Brauer SL, Cadillo-Quiroz H, Zinder SH, Imachi H
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.035048-0
- year: 2011
- mesh: Base Composition, DNA, Archaeal/genetics, DNA, Ribosomal/genetics, Hydrogen/*metabolism, Methane/*metabolism, Methanomicrobiales/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Oryza/growth & development, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/metabolism, *Soil Microbiology, Taiwan
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 17235 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23604) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23604 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 30394 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 26731 | 28776041 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 86845 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID397688.1 | StrainInfo: A central database for resolving microbial strain identifiers |